scholarly journals Hymenobacter rigui sp. nov., isolated from wetland freshwater

2006 ◽  
Vol 56 (9) ◽  
pp. 2189-2192 ◽  
Author(s):  
Keun Sik Baik ◽  
Chi Nam Seong ◽  
Eun Young Moon ◽  
Yoon-Dong Park ◽  
Hana Yi ◽  
...  
Keyword(s):  
Novel Species ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Optimum Growth ◽  
Gram Negative ◽  
Phenotypic Characters ◽  
Rrna Gene Sequencing ◽  
Sequence Similarities

A non-motile, rod-shaped and pinkish-red-pigmented bacterium, designated strain WPCB131T, was isolated from freshwater of Woopo wetland, Republic of Korea. Phylogenetic analysis based on 16S rRNA gene sequencing indicated that this isolate represents a novel member of the genus Hymenobacter with sequence similarities of 93.2–95.5 % to known Hymenobacter species. No other taxa in the phylum Bacteroidetes showed more than 90 % sequence similarity to the isolate. Cells were Gram-negative, oxidase-negative and catalase-positive. Optimum growth was observed at pH 6 and 30 °C. The major fatty acids were iso-C15 : 0 (34.8 %), C16 : 1 ω5c (15.0 %), anteiso-C17 : 1 B/iso-C17 : 1 I (14.4 %) and C16 : 1 ω7c/iso-C15 : 0 2-OH (13.8 %). The DNA G+C content of strain WPCB131T was 65 mol%. The isolate could be readily distinguished from other Hymenobacter species using a combination of phenotypic characters. On the basis of the polyphasic evidence presented in this study, it is proposed that strain WPCB131T (=IMSNU 14116T=KCTC 12533T=NBRC 101118T) represents a novel species, Hymenobacter rigui sp. nov.

scholarly journals Hymenobacter xinjiangensis sp. nov., a radiation-resistant bacterium isolated from the desert of Xinjiang, China

2007 ◽  
Vol 57 (8) ◽  
pp. 1752-1756 ◽  
Author(s):  
Qiuju Zhang ◽  
Cong Liu ◽  
Yali Tang ◽  
Guoling Zhou ◽  
Ping Shen ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Optimum Growth ◽  
Gram Negative ◽  
Radiation Resistant ◽  
Rrna Gene Sequencing ◽  
Sequence Similarities

A Gram-negative, non-motile, rod-shaped and pink-pigmented bacterium, designated strain X2-1gT, was isolated from a mixture of sand samples collected from the desert of Xinjiang, China, after exposure of the sand to 8 kGy gamma radiation. Phylogenetic analysis based on 16S rRNA gene sequencing indicated that this isolate represents a novel member of the genus Hymenobacter, with low sequence similarities (<97 %) to recognized Hymenobacter species. Biolog GN2 assays supported this conclusion. Optimum growth was observed at pH 7 and 28 °C. The strain contained MK-7 as the predominant menaquinone and the major fatty acids were iso-C15 : 0 (19.5 %), C16 : 1 ω7c/iso-C15 : 0 2-OH (20.2 %), C16 : 1 ω5c (10.6 %), C16 : 0 (6.2 %), anteiso-C17 : 1 B/iso-C17 : 1 I (8.5 %) and C18 : 0 (6.5 %). The DNA G+C content was 54 mol% (T m). On the basis of the polyphasic evidence presented, it is proposed that strain X2-1gT represents a novel species of the genus Hymenobacter, for which the name Hymenobacter xinjiangensis sp. nov. is proposed. The type strain is X2-1gT (=CCTCC AB 206080T =IAM 15452T).

scholarly journals Halomonas stevensii sp. nov., Halomonas hamiltonii sp. nov. and Halomonas johnsoniae sp. nov., isolated from a renal care centre

2010 ◽  
Vol 60 (2) ◽  
pp. 369-377 ◽  
Author(s):  
Kwang Kyu Kim ◽  
Keun Chul Lee ◽  
Hee-Mock Oh ◽  
Jung-Sook Lee
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Care Centre ◽  
Hybridization Data ◽  
Rrna Gene Sequencing

A total of 14 Halomonas strains were isolated from the blood of two patients and from dialysis machines of a renal care centre. The strains were Gram-negative, halophilic, motile and non-spore-forming rods. They produced cream-coloured colonies and contained Q-9 as the predominant ubiquinone and C18 : 1 ω7c and C16 : 0 as the major fatty acids. Phylogenetic analysis based on 16S rRNA gene sequencing showed that the 14 isolates were most closely related to Halomonas magadiensis 21 MIT with 98.1–98.9 % sequence similarity and that they formed three separate lineages among themselves. Combined phenotypic and DNA–DNA hybridization data support the conclusion that they represent three novel species of the genus Halomonas, for which the names Halomonas stevensii sp. nov. (type strain S18214T=KCTC 22148T=DSM 21198T), Halomonas hamiltonii sp. nov. (type strain W1025T=KCTC 22154T=DSM 21196T) and Halomonas johnsoniae sp. nov. (type strain T68687T=KCTC 22157T=DSM 21197T) are proposed.

scholarly journals Mucilaginibacter gotjawali sp. nov., isolated from soil of a lava forest

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 952-958 ◽  
Author(s):  
Keun Chul Lee ◽  
Kwang Kyu Kim ◽  
Mi Kyung Eom ◽  
Jong-Shik Kim ◽  
Dae-Shin Kim ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Gram Stain ◽  
Content Type ◽  
Link Type ◽  
Rrna Gene Sequencing

A novel bacterial strain, designated SA3-7T, was isolated from soil of a lava forest located in Jeju, Republic of Korea. Cells of strain SA3-7T were Gram-stain-negative, oxidase- and catalase-positive, non-motile rods and produced creamy white colonies on ten-fold-diluted R2A agar. The isolate contained menaquinone-7 (MK-7) as the predominant isoprenoid quinone and summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The DNA G+C content was 43.1 mol%. Phylogenetic analysis based on 16S rRNA gene sequencing showed that strain SA3-7T was related most closely to Mucilaginibacter frigoritolerans FT22T (96.7 % sequence similarity) and that it formed a separate lineage in the genus Mucilaginibacter . Combined phenotypic, chemotaxonomic and phylogenetic characteristics supported the conclusion that strain SA3-7T represents a novel species of the genus Mucilaginibacter , for which the name Mucilaginibacter gotjawali sp. nov. is proposed; the type strain is SA3-7T ( = KCTC 32515T = CECT 8628T = DSM 29289T).

scholarly journals Sphingomonas vulcanisoli sp. nov., isolated from soil of a lava forest

2015 ◽  
Vol 65 (Pt_10) ◽  
pp. 3320-3325 ◽  
Author(s):  
Keun Chul Lee ◽  
Kwang Kyu Kim ◽  
Jong-Shik Kim ◽  
Dae-Shin Kim ◽  
Suk-Hyung Ko ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Isoprenoid Quinone ◽  
Gram Stain ◽  
Rrna Gene Sequencing

A Gram-stain-negative, non-motile, yellow-pigmented and rod-shaped bacterial strain, designated SN6-13T, was isolated from soil of the Gotjawal, lava forest, located in Jeju, Republic of Korea. Cells of strain SN6-13T were oxidase- and catalase-positive. The isolate contained Q-10 as the predominant isoprenoid quinone, summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C16 : 0 as the major fatty acids, sym-homospermidine as the major polyamine and diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, sphingoglycolipid, ninhydrinphosphatidylglycerol and two unidentified aminophospholipids as the polar lipids. The DNA G+C content was 64.6 mol%. In phylogenetic analyses based on 16S rRNA gene sequencing, strain SN6-13T was most closely related to Sphingomonas laterariae LNB2T (95.4 % sequence similarity) and formed a separate lineage in the genus Sphingomonas. Based on phenotypic, chemotaxonomic and phylogenetic characteristics, it is concluded that strain SN6-13T represents a novel species of the genus Sphingomonas, for which the name Sphingomonas vulcanisoli sp. nov. is proposed. The type strain is SN6-13T ( = KCTC 42454T = CECT 8804T).

scholarly journals Methanosarcina horonobensis sp. nov., a methanogenic archaeon isolated from a deep subsurface Miocene formation

2011 ◽  
Vol 61 (10) ◽  
pp. 2503-2507 ◽  
Author(s):  
Satoru Shimizu ◽  
Rahul Upadhye ◽  
Yoji Ishijima ◽  
Takeshi Naganuma
Keyword(s):  
Genomic Dna ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Deep Subsurface ◽  
Optimum Ph ◽  
Rrna Gene Sequencing

A methanogenic organism, designated strain HB-1T, from the domain Archaea was isolated from groundwater sampled from a subsurface Miocene formation located in Horonobe, Hokkaido, Japan. The strain grew on methanol, dimethylamine, trimethylamine, dimethylsulfide and acetate but not on monomethylamine, H2/CO2, formate, 2-propanol, 2-butanol or cyclopentanol. Cells were Gram-reaction-negative, non-motile, irregular cocci that were 1.4–2.9 µm in diameter and occurred singly or in pairs. The strain grew at 20–42 °C (optimum 37 °C), at pH 6.0–7.75 (optimum pH 7.0–7.25) and in 0–0.35 M NaCl (optimum 0.1 M). The G+C content of the genomic DNA was 41.4 mol%. 16S rRNA gene sequencing revealed that the strain was a member of the genus Methanosarcina but that it clearly differed from all recognized species of this genus (93.1–97.9 % sequence similarity). The phenotypic and phylogenetic features of strain HB-1T indicate that it represents a novel species of the genus Methanosarcina, for which the name Methanosarcina horonobensis sp. nov. is proposed. The type strain is HB-1T ( = DSM 21571T  = JCM 15518T  = NBRC 102577T).

scholarly journals Pontibaca methylaminivorans gen. nov., sp. nov., a member of the family Rhodobacteraceae

2010 ◽  
Vol 60 (9) ◽  
pp. 2170-2175 ◽  
Author(s):  
Kwang Kyu Kim ◽  
Jung-Sook Lee ◽  
Keun Chul Lee ◽  
Hee-Mock Oh ◽  
Song-Gun Kim
Keyword(s):  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
The Family ◽  
Novel Genus And Species ◽  
Unknown Phospholipid ◽  
Rrna Gene Sequencing ◽  
Family Rhodobacteraceae

The alphaproteobacterial strains GRP21T and PH34, which were isolated from coastal sediment of the East Sea, Korea, were subjected to a polyphasic taxonomic investigation. The strains were Gram-negative, non-motile, non-spore-forming, oval-shaped rods that produced creamy-white colonies on tryptic soy agar, required NaCl for growth, contained Q-10 as the predominant ubiquinone, contained 16 : 0, 18 : 1ω7c and 19 : 0 cyclo ω8c as major fatty acids and had polar lipid profiles consisting of phosphatidylcholine, phosphatidylglycerol, an unknown aminolipid, an unknown phospholipid and three unknown lipids. Phylogenetic analysis, based on 16S rRNA gene sequencing, showed that the strains were most closely related to Donghicola eburneus KCTC 12735T, with 94.5 % sequence similarity, but formed a separate lineage within the family Rhodobacteraceae. The combined genotypic and phenotypic data supported the conclusion that the strains represent a novel genus and species, for which the name Pontibaca methylaminivorans gen. nov., sp. nov. is proposed. The type strain of Pontibaca methylaminivorans is GRP21T (=KCTC 22497T =DSM 21219T).

scholarly journals Leuconostoc durionis sp. nov., a heterofermenter with no detectable gas production from glucose

2005 ◽  
Vol 55 (3) ◽  
pp. 1267-1270 ◽  
Author(s):  
J. J. Leisner ◽  
M. Vancanneyt ◽  
R. Van der Meulen ◽  
K. Lefebvre ◽  
K. Engelbeen ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Gas Production ◽  
Rrna Gene ◽  
Nearest Neighbour ◽  
Sds Page ◽  
Rrna Gene Sequencing

Three lactic acid bacterial (LAB) strains obtained from a Malaysian acid-fermented condiment, tempoyak (made from pulp of the durian fruit), showed analogous but distinct patterns after screening by SDS-PAGE of whole-cell proteins and comparison with profiles of all recognized LAB species. 16S rRNA gene sequencing of one representative strain showed that the taxon belongs phylogenetically to the genus Leuconostoc, with its nearest neighbour being Leuconostoc fructosum (98 % sequence similarity). Biochemical characteristics and DNA–DNA hybridization experiments demonstrated that the strains differ from Leuconostoc fructosum and represent a single, novel Leuconostoc species for which the name Leuconostoc durionis sp. nov. is proposed. The type strain is LMG 22556T (=LAB 1679T=D-24T=CCUG 49949T).

scholarly journals Detection of Cardiobacterium valvarum in a patient with aortic valve infective endocarditis by broad-range PCR

2010 ◽  
Vol 59 (2) ◽  
pp. 231-234 ◽  
Author(s):  
Martina Vaněrková ◽  
Barbora Žaloudíková ◽  
Eva Němcová ◽  
Jana Juránková ◽  
Jiří Pol ◽  
...  
Keyword(s):  
Infective Endocarditis ◽  
Aortic Valve ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Negative Bacterium ◽  
Review Of The Literature ◽  
Gram Negative ◽  
Prosthetic Aortic Valve ◽  
Rrna Gene Sequencing

Cardiobacterium valvarum, a fastidious Gram-negative bacterium, was detected in the aortic valve of a previously healthy 63-year-old man by broad-range PCR and 16S rRNA gene sequencing. In contrast to the patients in five previously published cases, our patient had neither a congenital bicuspid nor a prosthetic aortic valve. Here, we present a case of C. valvarum native tricuspid aortic valve infective endocarditis and a review of the literature.

Emendation of the description of the species Corynebacterium propinquum to include strains which produce urease

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2146-2154 ◽  
Author(s):  
Kathryn Bernard ◽  
Ana Luisa Pacheco ◽  
Ian Cunningham ◽  
Navdeep Gill ◽  
Tamara Burdz ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Single Test ◽  
Content Type ◽  
Link Type ◽  
Corynebacterium Pseudodiphtheriticum ◽  
Rrna Gene Sequencing

Corynebacterium propinquum is a Gram-positive rod occasionally recovered from clinical infections which, according to 16S rRNA gene sequencing, is most closely related (>99 % sequence similarity) to Corynebacterium pseudodiphtheriticum . The two species are very similar biochemically, commonly differentiated by a single test, the detection of urease, where strains of C. propinquum are described as being urease-non-producing and strains of C. pseudodiphtheriticum are described as urease-producing. In this study, historical and contemporary strains of C. propinquum and C. pseudodiphtheriticum from this laboratory were definitively characterized, which included use of rpoB sequencing. Urease-producing strains of C. propinquum as well as typical urease-non-producing isolates were identified after rpoB sequencing, with six of these being originally identified as C. pseudodiphtheriticum . Based on these observations, we propose emendation of the description of C. propinquum to include strains which produce urease. MALDI-TOF analysis may be a useful tool to differentiate these taxa. Existing commercial databases should be updated to include urease-positive strains of C. propinquum .

scholarly journals Sutterella stercoricanis sp. nov., isolated from canine faeces

2004 ◽  
Vol 54 (5) ◽  
pp. 1581-1584 ◽  
Author(s):  
Hazel L. Greetham ◽  
Matthew D. Collins ◽  
Glenn R. Gibson ◽  
Catriona Giffard ◽  
Enevold Falsen ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Molecular Genetic ◽  
Gene Sequencing ◽  
Sequence Divergence ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Anaerobic Conditions ◽  
Genetic Studies ◽  
Rrna Gene Sequencing

Morphological, biochemical and molecular genetic studies were carried out on an unknown non-spore-forming, Gram-negative, rod-shaped bacterium which was isolated from dog faeces. The bacterium grew under anaerobic conditions, was asaccharolytic, resistant to 20 % (v/v) bile and was oxidase- and urease-negative. Phylogenetic analysis based on comparative 16S rRNA gene sequencing showed that the unidentified bacterium clustered with Sutterella wadsworthensis, although a sequence divergence of >5 % indicated that the bacterium from dog faeces represented a previously unrecognized subline within the genus. On the basis of the presented findings, a novel species, Sutterella stercoricanis sp. nov., is described. The type strain of Sutterella stercoricanis is 5BAC4T (=CCUG 47620T=CIP 108024T).

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